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- EMDB-29537: Hair Cell Stereocilia (NAD filtered, Rotated, Trimmed) -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-29537
TitleHair Cell Stereocilia (NAD filtered, Rotated, Trimmed)
Map dataNAD denoised, rotated, Cryo-ET map of mouse utricle Pls1-/- hair cell stereocilia
Sample
  • Organelle or cellular component: Hair Cell Stereocilia
Biological speciesMus (mice)
Methodelectron tomography / cryo EM
AuthorsAuer M / Song J
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) United States
CitationJournal: To Be Published
Title: Hair Cell Stereocilia (NAD filtered, Rotated, Trimmed)
Authors: Auer M / Song J
History
DepositionJan 25, 2023-
Header (metadata) releaseFeb 15, 2023-
Map releaseFeb 15, 2023-
UpdateFeb 15, 2023-
Current statusFeb 15, 2023Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_29537.png

Downloads & links

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Map

FileDownload / File: emd_29537.map.gz / Format: CCP4 / Size: 382.8 MB / Type: IMAGE STORED AS SIGNED INTEGER (2 BYTES)
AnnotationNAD denoised, rotated, Cryo-ET map of mouse utricle Pls1-/- hair cell stereocilia
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
9.47 Å/pix.
x 483 pix.
= 4574.01 Å		9.47 Å/pix.
x 1194 pix.
= 11307.181 Å		9.47 Å/pix.
x 348 pix.
= 3295.56 Å

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 9.47 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum0.0 - 31642.0
Average (Standard dev.)12823.29 (±2080.019)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-596-173-241
Dimensions1194348483
Spacing3481194483
CellA: 3295.56 Å / B: 11307.181 Å / C: 4574.0103 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Hair Cell Stereocilia

EntireName: Hair Cell Stereocilia
Components
  • Organelle or cellular component: Hair Cell Stereocilia

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Supramolecule #1: Hair Cell Stereocilia

SupramoleculeName: Hair Cell Stereocilia / type: organelle_or_cellular_component / ID: 1 / Parent: 0
Details: Hair Cell Stereocilia Cryo-electron tomogram of Pls1-/- Mouse Utricle
Source (natural)Organism: Mus (mice)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statetissue

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Sample preparation

BufferpH: 7
VitrificationCryogen name: ETHANE-PROPANE
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: Nanoprobes / Diameter: 14 nm

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON II (4k x 4k) / Average electron dose: 80.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 4.5 µm / Nominal defocus min: 3.5 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionNumber images used: 87

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